MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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Rank	Gene	description	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1508 to 1557 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Value Type	red	green	network_comparison
377	ornithine decarboxylase (ec 4.1.1.17) (odc). [swissprot;acc:p11926]	Squared	33044.9	40781.4	1.23412
378	60s ribosomal protein l30. [swissprot;acc:p04645]	Ranked	242.593	265.365	1.09387
	eukaryotic translation initiation factor 4 gamma, 3. [refseq;acc:nm_003760]	Squared	15034.5	18552.2	1.23398
	hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0]	Measured	12471.7	14561.7	1.16758
	mitochondrial ribosomal protein l4 isoform a. [refseq;acc:nm_015956]	Rooted	50.5816	45.8738	1.10263
379	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	Ranked	241.509	264.163	1.0938
	aminoadipate-semialdehyde synthase; lysine-ketoglutarate reductase /saccharopine dehydrogenase; lysine-2-oxoglutarate reductase; aminoadipic semialdehyde synthase. [refseq;acc:nm_005763]	Squared	33010.8	40732.2	1.23391
	ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315]	Rooted	59.5128	65.604	1.10235
	ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350]	Measured	6704.44	7811.45	1.16512
380	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]		12998.5	15138.2	1.16461
	calcyphosine. [swissprot;acc:q13938]	Rooted	59.5128	65.604	1.10235
	ornithine decarboxylase-like protein (ec 4.1.1.17) (odc-paralogue) (odc-p). [swissprot;acc:q96a70]	Squared	32991.5	40704.5	1.23379
	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	Ranked	242.109	264.79	1.09368
381	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Rooted	59.5128	65.604	1.10235
	multisynthetase complex auxiliary component p43 [contains: endothelial-monocyte activating polypeptide ii (emap-ii) (small inducible cytokine subfamily e member 1)]. [swissprot;acc:q12904]	Measured	5246.01	6109.31	1.16456
	ornithine decarboxylase antizyme inhibitor. [swissprot;acc:o14977]	Squared	32987.4	40698.5	1.23376
	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Ranked	200.586	183.423	1.09357
382	40s ribosomal protein s23. [swissprot;acc:p39028]	Rooted	49.8325	45.2077	1.1023
	parkinson disease (autosomal recessive, juvenile) 2, parkin isoform 1; parkin. [refseq;acc:nm_004562]	Measured	4533.74	5279.4	1.16447
	rna-binding protein. [refseq;acc:nm_019027]	Squared	15043.7	18560.1	1.23375
	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	Ranked	200.791	183.66	1.09328
383	28s ribosomal protein s12, mitochondrial precursor (mpr-s12) (mt- rps12). [swissprot;acc:o15235]	Rooted	49.8325	45.2077	1.1023
	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Squared	15043.7	18560.1	1.23375
	hepatoma-derived growth factor-related protein 2. [refseq;acc:nm_032631]	Measured	4533.74	5279.4	1.16447
	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	Ranked	237.862	217.739	1.09242
384	60s ribosomal protein l23 (l17). [swissprot;acc:p23131]	Rooted	50.7723	46.0607	1.10229
	cgi-142; hepatoma-derived growth factor 2. [refseq;acc:nm_016073]	Measured	4533.74	5279.4	1.16447
	ns1-associated protein 1. [refseq;acc:nm_006372]	Squared	15043.7	18560.1	1.23375
	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	Ranked	266.421	244.236	1.09083
385	brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	Rooted	50.7723	46.0607	1.10229
	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Squared	15043.7	18560.1	1.23375
	pc4 and sfrs1 interacting protein 2; pc4 and sfrs1 interacting protein 1; transcriptional coactivator p52/p75. [refseq;acc:nm_033222]	Measured	4533.74	5279.4	1.16447
	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	Ranked	266.421	244.236	1.09083
386	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]		242.238	264.11	1.09029
	60s ribosomal protein l8. [swissprot;acc:p25120]	Measured	4533.74	5279.4	1.16447
	protein translation factor sui1 homolog gc20. [swissprot;acc:o60739]	Rooted	50.0513	45.4124	1.10215
	scratch; scratch 1. [refseq;acc:nm_031309]	Squared	40388.9	49827.5	1.23369
387	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	Ranked	242.238	264.11	1.09029
	60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914]	Rooted	50.3345	45.6718	1.10209
	eukaryotic translation initiation factor 4 gamma (eif-4-gamma) (eif- 4g) (eif4g) (p220). [swissprot;acc:q04637]	Squared	15053	18568	1.23351
	hepatoma-derived growth factor (hdgf) (high-mobility group protein 1- like 2) (hmg-1l2). [swissprot;acc:p51858]	Measured	4533.74	5279.4	1.16447
388	dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	Squared	40315.7	49716.4	1.23318
	pwwp domain containing 1; hdgf (hepatoma-derived growth factor) like. [refseq;acc:nm_138574]	Measured	4533.74	5279.4	1.16447
	serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4]	Rooted	50.3345	45.6718	1.10209
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Ranked	227.575	208.756	1.09015
389	60s ribosomal protein l34. [swissprot;acc:p49207]	Rooted	50.3345	45.6718	1.10209
	arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320]	Squared	31819.7	39222.2	1.23264
	probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196]	Measured	4533.74	5279.4	1.16447
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	Ranked	227.575	208.756	1.09015
390	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]		241.828	263.62	1.09011

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.